GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
ASL_C - Adenylosuccinate lyase C-terminal
Pfam: PF08328 (v27) Consensus Sequence
Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )
Length: 115
Sequences: 1881
Seq/Len: 16.36
HH_delta: 0.341 (20Jul13)
GREMLIN Results:
Residue pairs sorted by strength in covariance:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

ij Raw Score Scaled Score
43_R46_E0.904673.554
66_Y105_R0.810663.185
94_E107_L0.743482.921
90_R107_L0.737222.896
102_A105_R0.692962.722
45_A49_D0.610852.400
81_G85_T0.549182.158
59_I93_I0.527172.071
31_L35_G0.512292.013
90_R94_E0.477461.876
10_S14_R0.472141.855
88_D91_E0.457711.798
58_P113_T0.455371.789
42_E46_E0.447781.759
41_E45_A0.443861.744
55_L109_L0.413721.625
78_L96_L0.411271.616
45_A112_A0.383341.506
40_N43_R0.374721.472
78_L92_F0.357381.404
79_T89_L0.347531.365
104_A108_A0.340391.337
72_Y76_K0.335841.319
62_V65_R0.330141.297
94_E103_K0.328141.289
87_E95_S0.328051.289
43_R47_D0.326411.282
99_P103_K0.323891.272
91_E95_S0.321741.264
85_T88_D0.320391.259
46_E50_E0.319891.257
63_M71_P0.318441.251
87_E91_E0.308391.212
99_P102_A0.29021.140
41_E44_L0.289551.138
11_T14_R0.287521.130
98_I102_A0.285151.120
9_D14_R0.282611.110
109_L113_T0.281571.106
7_L14_R0.278931.096
112_A115_I0.277611.091
87_E92_F0.274991.080
103_K107_L0.274961.080
78_L81_G0.271791.068
74_K93_I0.268421.055
75_L79_T0.264421.039
105_R108_A0.264341.039
7_L11_T0.263011.033
63_M98_I0.260421.023
55_L114_Y0.257361.011
5_R13_L0.257031.010
74_K77_E0.251740.989
68_I74_K0.24970.981
70_N77_E0.24530.964
84_I89_L0.243660.957
51_N83_K0.24240.952
21_G25_I0.241010.947
42_E45_A0.239980.943
100_E104_A0.239460.941
58_P114_Y0.239010.939
6_D9_D0.238710.938
100_E107_L0.237690.934
60_Q72_Y0.237140.932
7_L76_K0.236970.931
67_G71_P0.235480.925
7_L10_S0.234910.923
40_N80_R0.231990.911
30_L35_G0.231420.909
46_E86_K0.231110.908
91_E94_E0.230170.904
57_E113_T0.229860.903
99_P106_L0.229740.903
90_R106_L0.229360.901
30_L33_G0.226780.891
78_L93_I0.226570.890
28_K31_L0.225150.885
81_G95_S0.225030.884
85_T92_F0.222190.873
4_Q13_L0.221880.872
52_W86_K0.220730.867
8_T11_T0.22050.866
57_E114_Y0.219580.863
5_R14_R0.218340.858
59_I106_L0.214680.843
9_D76_K0.210150.826
23_S27_Y0.20780.816
6_D11_T0.20750.815
49_D88_D0.207390.815
61_T72_Y0.207380.815
8_T14_R0.206750.812
20_F27_Y0.204780.805
15_N26_A0.20360.800
47_D50_E0.202980.797
30_L34_L0.201620.792
60_Q76_K0.200190.786
95_S100_E0.199210.783
6_D10_S0.198760.781
68_I71_P0.197990.778
22_H25_I0.194050.762
51_N54_V0.193690.761
3_W9_D0.191660.753
39_V44_L0.191610.753
82_K92_F0.191550.753
3_W13_L0.190950.750
6_D14_R0.190670.749
97_D100_E0.190430.748
56_A79_T0.190410.748
8_T76_K0.189120.743
31_L34_L0.188430.740
52_W92_F0.186950.734
81_G92_F0.185850.730
33_G36_K0.185540.729
20_F24_L0.183820.722
90_R93_I0.182910.719
88_D92_F0.182850.718
63_M99_P0.182420.717
42_E83_K0.182390.717
7_L57_E0.180620.710
104_A107_L0.178970.703
69_P73_E0.178220.700
94_E106_L0.177750.698
80_R84_I0.176410.693
32_K35_G0.176390.693
70_N82_K0.176360.693
32_K36_K0.176120.692
93_I96_L0.174790.687
82_K88_D0.174760.687
62_V113_T0.174350.685
5_R10_S0.172330.677
74_K96_L0.172190.676
104_A110_T0.171120.672
63_M74_K0.170760.671
21_G24_L0.170520.670
76_K80_R0.170340.669
14_R76_K0.170220.669
104_A112_A0.169350.665
15_N25_I0.169120.664
11_T76_K0.167380.658
90_R108_A0.166610.655
20_F51_N0.166130.653
68_I98_I0.166020.652
91_E103_K0.163740.643
38_E55_L0.163350.642
10_S13_L0.163260.641
29_S56_A0.163190.641
70_N73_E0.163060.641
49_D112_A0.162040.637
46_E49_D0.16070.631
57_E64_R0.159070.625
109_L115_I0.158410.622
83_K88_D0.157710.620
55_L111_P0.157690.620
62_V105_R0.157640.619
75_L89_L0.15730.618
47_D84_I0.156510.615
10_S76_K0.155890.612
91_E104_A0.155570.611
95_S99_P0.155430.611
34_L38_E0.15540.611
52_W88_D0.154740.608
25_I28_K0.154480.607
22_H26_A0.154270.606
53_E82_K0.154250.606
9_D13_L0.153260.602
86_K92_F0.153210.602
Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.
HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits:

Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)
PDB Cov Prob HH_delta
2qgaB199.80.341
3bhgA199.80.345
4efcA199.80.346
2ptrA199.70.385
1q5nA199.70.416
3c8tA199.70.417
1c3cA199.70.421
2pfmA199.70.431
1re5A199.60.439
2j91A0.973999.60.458

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